Sequence
atgc intronic sequence ATGC exonic sequence...gtgcacagttgcactaccttctgtttgagatgtgcttttaactttgtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
Basic information
species | Glycine max |
transcript | GLYMA09G25200.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G25200.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G077222_T01 (Zea mays), 3'ss of exon 6
gtgcacagttgcactaccttctgtttgagatgtgcttttaactttgtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
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--------------------------gtgatgatatttcaattgtatgtgcc-tctctcatacgctctatcaaactcctaatcagttgtcttcccttcagTCCTTTGTCACGTCAAGACCTTGTGAGTTGGAAAATGGCCCTGGATAAGAGACAACTGCCTGAAGTTGACAGAAAT
upper sequence: GLYMA09G25200.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G23890.1 (Arabidopsis thaliana), 3'ss of exon 6
----gtgcacagttgcactaccttctgt--ttgagatgtgcttttaactttgtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
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ctgtttttagaatatcatggatttctgtactttgacaatgcctttgcgttta-atact-ttgcttatttctacaaattttgcttgtttct-tgtccgac---gcagCCTTCTTTCACGCCAGGATCTGATAAGCTGGAAAATGGCCTTGGAGAAACGACAACTTCCAGAAGCTGATAAAAAG
upper sequence: GLYMA09G25200.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv16s0050g00600.t01 (Vitis vinifera), 3'ss of exon 7
--gtgcacagttgcactaccttctgtttgagatgtgcttttaactttgtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
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gcatgcttgtgtttgcttgctattgtctcagattttttttt--tttcccctccccttttctcctcttttccctgtcttcctcaccaaaattttcctgtgcagCCCATTGTCACGGCAAGATCTTGTGAGCTGGAAGATGGCCCTAGAGAAAAGACAGCTCCCAGAAACTGACAAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
cctcccttctctccta CT-rich tract
tatattcattt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcacagttgcactaccttctgtttgagatgtgcttttaactttgtatggtgtaggctacaattgtgacctcccttctctcctatattcatttctgcagTCCTTTATCACGTCAAGATCTTGTCAGCTGGAAAATGGCCCTGGAGAAAAGACAGCTTCCGGAAGCTAACAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
-tgcacag
- - - - -tgcacta
- - - - - - - - ccttctg
- - - - - - - - - - - - - - - - tgctttt
- - - - - - - - - - - - - - - - - - - - - - - tatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggctaca