Sequence
atgc intronic sequence ATGC exonic sequence...tgaagtgtactttattgtatcctatgaaattgtataaattcttagagttttgtaattgtaaaatattatcactgatatagaaaattgttatttgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g06300.1 (Oryza sativa), 3'ss of exon 5
tgaagtgtactttattgtatcctatgaaattgtataaatt-cttagagttttgt----aattgtaaaatattatcactgatatagaaaattgttatttgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
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---tttgctatagatgaaaacatttaaatctttaactgttacgtgacattctgctacagattttcaattctttctatttg-acagatgacttgttctagtt-tagGTACTAAACAAAATAGATCTTCCTGGTGCCGAACCTGATCGTGTTGCGCAGGAGATTGAAGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G003157_T01 (Zea mays), 3'ss of exon 5
tgaagtgtactttattgtatcc---tatgaaattgtataaattcttagagttttgtaattgtaaaatattatcactgata---tagaaaattgttatttgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
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-----tgc-ccttattaaacttagatagcaaattaaacaatttatatgatatccagatatcctttctcctttttctgttcgaccatgactttgtcttctaattcagGTTCTAAATAAAATAGATCTTCCTGGTGCTGAACCTGATCGTGTCGCACAGGAAATTGAAGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 5
tgaagtgtactttattgtatcctatgaaattgtataaattcttagagt----tttgtaattgtaaaatattatcactgatatagaaaattgttatt-tgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
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-----tctgtttttccatcacttttctcaagttataaatttatgagataatatgtccatgtgttgcgtgtgtgcatgtttagtaacactagatattctgtaacagGTTTTGAACAAAATAGATCTCCCAGGTGCAGAACCAGATCGAGTTATCAAGGAGATTGAAGAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 5
tgaagtgtactttattgtatcctatgaaattgtataaattcttagagt------tttgtaattgtaaaatattatcactgatatagaaaattgttatt-tgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
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-----tgttttttcatcacttttctcaagtt--ataaatttatgagataatatgtttgtatgtgttgcgtgtgtgcatgtttagtaacactagatattgtgtaacagGTTTTGAACAAAATAGATCTCCCAGGTGCAGAACCAGATCGAGTAATCAAGGAGATTGAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttgtaattgtaaaatattatcactgatatagaaaattgttatttgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
cactgat putative branch site (score: 3)
taaaatattatcactg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaagtgtactttattgtatcctatgaaattgtataaattcttagagttttgtaattgtaaaatattatcactgatatagaaaattgttatttgtcacagGTTTTGAACAAAATAGATCTTCCAGGTGCTGAACCAGTTCGTGTTTCTCAGGAGATTGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - -tcctatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat