Sequence
atgc intronic sequence ATGC exonic sequence...ggattcatttttaatatgttagattgacaatattcataatcttattagtatcataccccaggtggattcagttaattggttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
Basic information
species | Glycine max |
transcript | GLYMA04G02020.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G02020.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g04100.1 (Oryza sativa), 3'ss of exon 3
----ggattcatttttaatatgttagattgacaatattcataatcttattagtatcataccccaggtggattcagttaattggttttattgatctaat---tgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
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cgtagctaactcttttggcacatta-atcaatgctggacagaattcttgagttgtta------aaaagattttttctaacagatctcaataatttattatgtggcagTGGTGGGAGAAAAGTGATTGGACCGGATATAAGGAGTTAG
upper sequence: GLYMA04G02020.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G126812_T01 (Zea mays), 3'ss of exon 3
ggattcatttttaatatgttagattgaca---atattcataatcttattagtatcataccccaggtggattcagttaattg-gttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
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---ctttttcatcaaaggacctactgaagtttgcagcaataatcttgtt-gtttagtttacttgaaatcttaataacatcatgtaacattattctgtgtggcagTGGTGGGAGAAAAGTGACTGGACTGGATATAAGGAATTAG
upper sequence: GLYMA04G02020.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G110345_T01 (Zea mays), 3'ss of exon 3
ggattcatttttaatatgttagattg-acaatattcataatcttattagt-atcataccccaggtggattcagttaattggttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
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-ttttcatcaaagacctaccacattatgcaagtttagtaatcttgttgttcagtttacttcaaatcttgataac-accgtgtaacattgttctgtgtggcagTGGTGGGAGAAAAGTGACTGGACTGGATATAAGGAATTAG
upper sequence: GLYMA04G02020.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G42430.2 (Arabidopsis thaliana), 3'ss of exon 3
ggattcatttttaatat-gttagattgacaatattc---ataatcttatta-gtatcataccccaggtggattcagttaattggttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
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---tgttccctgagtgtagttatcttgaggttattcttcgtaaccccatgaagtatc--accccaggtggacgcgtttaatcggatttattgatatccttgacagTGGTGGGAGAAAAGTGACTGGACTGGATACAAAGAGTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtatcataccccaggtggattcagttaattggttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
atctaat putative branch site (score: 3)
ttttattgatctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggattcatttttaatatgttagattgacaatattcataatcttattagtatcataccccaggtggattcagttaattggttttattgatctaattgacagTGGTGGGAGAAGAGTGACTGGACTGGATATAAGGAGCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -cataccc