Sequence
atgc intronic sequence ATGC exonic sequence...cacttcagtggaatcacttattaactggggtcttcgtaatctaccataaaaaaattgtgataattttttagatgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
Basic information
species | Glycine max |
transcript | GLYMA03G40290.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 7
cacttcagtggaatcacttattaactggggtcttcgtaatctaccataaaaaaattgtgataattttttagatgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
||| | | | || | ||| | || || || | | | | ||| | ||| ||| |||||| ||||| || ||||||||||| ||||||||||| ||||| |||||||| || || ||||||||
-------------------gttagttaag-cccaaacaaaccctcattagttaacggttttatgctcagtgttaacttggatgttggtgactgattccagGCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAG
upper sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 5
--cacttcagt--ggaatcacttattaactggggtcttcgtaatctaccataaaaaaattgtgataattttttagatgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
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gtgagtcaaactaggaaacacttactagtcaacgatgttata---cacttcgagaacatcaag-tattaacttggctgcttg-----ctgtcc--tgatttcagGCATTCCACTGACCGTGAGGTTGCGCTTATGATGCTCATGGCTTACCTCTCCTACATGCTGGCCGAG
upper sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 7
cacttcagtggaatcacttattaactggggtcttcgtaatctaccataaaaa-aattgtgataattttttag-atgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
| | || | | || | | || | | || || | | || ||| | ||| | | | | |||| || || | | |||||||||||| ||||| |||||||| ||||||||||| |||||||||||||||||||| || ||||||
-tttatgataaaacctcagatcatgtaggaa-tacatataataatacgagaataatcatactaaagacaaaatacacttacagaatttctgacaaaatccagGCACTCTACTGATCGGGAGGTTGCCCTTATGATGCTTATGGCATACCTTTCCTACATACTTGCTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaaaaaattgtgataattttttagatgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
tgctcac putative branch site (score: 2)
ctcactc CT-rich tract
aaaattgtgataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacttcagtggaatcacttattaactggggtcttcgtaatctaccataaaaaaattgtgataattttttagatgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
cacttca
- - - - - - - - - - - - - - - - - - - -tctacca
- - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa