Int64 with null value mangles large-ish integers
#### Code Sample, a copy-pastable example if possible

```python
import pandas as pd
import numpy as np

x = 9999999999999999
y = 123123123123123123
z = 10000000000000543
s = pd.Series([1, 2, 3, x, y, z], dtype="Int64")
s[3] == x  # True
s
s2 = pd.Series([1, 2, 3, x, y, z, np.nan], dtype="Int64")
s2[3] == x  # False
s2
np.iinfo(np.int64).max
```

With interpreter output:
```python
>>> import pandas as pd
>>> import numpy as np
>>> 
>>> x = 9999999999999999
>>> y = 123123123123123123
>>> z = 10000000000000543
>>> s = pd.Series([1, 2, 3, x, y, z], dtype="Int64")
>>> s[3] == x  # True
True
>>> s
0                     1
1                     2
2                     3
3      9999999999999999
4    123123123123123123
5     10000000000000543
dtype: Int64
>>> s2 = pd.Series([1, 2, 3, x, y, z, np.nan], dtype="Int64")
>>> s2[3] == x  # False
False
>>> s2
0                     1
1                     2
2                     3
3     10000000000000000
4    123123123123123120
5     10000000000000544
6                   NaN
dtype: Int64
>>> np.iinfo(np.int64).max
9223372036854775807
```
#### Problem description

It seams that the presence of `np.nan` values in a column being typed as `Int64` causes some non-null values to be mangled. This seems to happen with large-ish values (but still below the max int limit).

Given that Int64 is the "Nullable integer" data type, null values should be allowed, and should certainly not silently change the values of other elements in the data frame.

#### Expected Output
```python
>>> import pandas as pd
>>> import numpy as np
>>> 
>>> x = 9999999999999999
>>> y = 123123123123123123
>>> z = 10000000000000543
>>> s = pd.Series([1, 2, 3, x, y, z], dtype="Int64")
>>> s[3] == x  # True
True
>>> s
0                     1
1                     2
2                     3
3      9999999999999999
4    123123123123123123
5     10000000000000543
dtype: Int64
>>> s2 = pd.Series([1, 2, 3, x, y, z, np.nan], dtype="Int64")
>>> s2[3] == x  # True (was False above)
True
>>> s2
0                     1
1                     2
2                     3
3      9999999999999999
4    123123123123123123
5     10000000000000543
6                   NaN
dtype: Int64
>>> np.iinfo(np.int64).max
9223372036854775807
```


#### Output of ``pd.show_versions()``

<details>

INSTALLED VERSIONS
------------------
commit           : None
python           : 3.7.1.final.0
python-bits      : 64
OS               : Darwin
OS-release       : 19.0.0
machine          : x86_64
processor        : i386
byteorder        : little
LC_ALL           : None
LANG             : en_CA.UTF-8
LOCALE           : en_CA.UTF-8

pandas           : 0.25.3
numpy            : 1.17.4
pytz             : 2019.3
dateutil         : 2.8.1
pip              : 10.0.1
setuptools       : 39.0.1
Cython           : None
pytest           : None
hypothesis       : None
sphinx           : None
blosc            : None
feather          : None
xlsxwriter       : None
lxml.etree       : None
html5lib         : None
pymysql          : None
psycopg2         : None
jinja2           : None
IPython          : None
pandas_datareader: None
bs4              : None
bottleneck       : None
fastparquet      : None
gcsfs            : None
lxml.etree       : None
matplotlib       : None
numexpr          : None
odfpy            : None
openpyxl         : None
pandas_gbq       : None
pyarrow          : None
pytables         : None
s3fs             : None
scipy            : None
sqlalchemy       : None
tables           : None
xarray           : None
xlrd             : None
xlwt             : None
xlsxwriter       : None
</details>
