Sequence
atgc intronic sequence ATGC exonic sequence...ttagtaataatgttgtggaagatatttctttagtaacgatgtgatatgatattattctcattctgatttggaacatcctgtttttctgtgtccatttcagGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
Basic information
species | Glycine max |
transcript | GLYMA19G39300.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G03457.2 (Arabidopsis thaliana), 3'ss of exon 2
ttagtaataatgttgtggaagatatttctttagtaacgatgtg-atatgatattattctcattctgatttggaacatcctgtttttctgtgtccatttcagGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
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tttctgtggccggtatctga-acattaggatgcttatgggctatgtacactcttatccctctctcgaattatagaattcactttcttatgatatgtttcagGCATCTAGTCCGTTGCAAGTTAAGTATGCAGATGGCGAGTTGGAAAGACTAG
upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0104g01150.t01 (Vitis vinifera), 3'ss of exon 2
---ttagtaataatgttgtggaagatatttctttagtaacgatgtgatatgatattattctcattctgatttggaa-catcctgtttttctgtgtccatttcagGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
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tcgttgcctaaaaatttgctgcatac-tttgttaggttgtgatgcatt--catgttattctttgtctgattaaaaggtattctgctctttc-tgtctaattcagGCATCTAGCCCGTTGCAAGTGAAGTATGCAGATGGCGAGTTGGAAAGGCTAG
upper sequence: GLYMA19G39300.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S12_239V6.1 (Physcomitrella patens), 3'ss of exon 4
ttagtaataatgttgtggaagatatttctttagtaacgatgtgatatgatattattctcattctgatttggaacatcctgtttttctgtgtccatttc---------agGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
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-------aaagtccatgcatgtttaatgtttgcagcttaccttccat-atattcaccaattggagacccgtaaaattctgatttactg-atacatttctggaatgatagGTAGCCAGTCCCTTGCAAGTGAAGTATGCTGATGGCGAGATGGAACGATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatattattctcattctgatttggaacatcctgtttttctgtgtccatttcagGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
ttctgat putative branch site (score: 3)
tccatttc putative PPT
attattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagtaataatgttgtggaagatatttctttagtaacgatgtgatatgatattattctcattctgatttggaacatcctgtttttctgtgtccatttcagGCATCTAGTCCATTACAAGTGAAGTATGCAGATGGCGAGCTGGAAAGATTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - -gttgtgg
- - - - - - - - - - - - - - - - - - - - -tgatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg