Sequence
atgc intronic sequence ATGC exonic sequence...ccttttgaaataaaataacaatgaatacatgtgatgtggttgatgtgaggaaggttctaagatttgatggtttctgggatctggttcttattgggtttagGTTGAAGCCTAAGAAGACAAATCAGAAGAGACAGAGAGAACCAAGATTCGCATTCATGACGAAAAGCGAGGTCGATCATCTGGAAGATGGATACAGATGG
Basic information
species | Glycine max |
transcript | GLYMA02G01420.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01420.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g01710.t01 (Vitis vinifera), 3'ss of exon 1
ccttttgaaataaaataacaatgaatacatgtg-atgtggttgatgtgaggaaggttctaagatttgatggtttctgggatc--tggttcttattgggtttagGTTGAAGCCTAAGAAGACAA---ATCAGAAGAGACAGAGAGAACCAAGATTCGCATTCATGACGAAAAGCGAGGTCGATCATCTGGAAGATGGATACAGATGG
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---ttgaggagaaattcagaaaggatacaaggatgtttgatttgcttgttcatggcttttttcttttctttttttcttttttgtttgcatttatggggtacagGTTGAAGCCCAAGAAGACAACAAGTCAAAAGAGGCAGAGAGAACCGAGATTCGCCTTCATGACAAAGAGCGAGGTTGATCATCTGGAAGATGGGTACAGA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaggaaggttctaagatttgatggtttctgggatctggttcttattgggtttagGTTGAAGCCTAAGAAGACAAATCAGAAGAGACAGAGAGAACCAAGATTCGCATTCATGACGAAAAGCGAGGTCGATCATCTGGAAGATGGATACAGATGG
atttgat putative branch site (score: 5)
ttcttatt putative PPT
taagattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttttgaaataaaataacaatgaatacatgtgatgtggttgatgtgaggaaggttctaagatttgatggtttctgggatctggttcttattgggtttagGTTGAAGCCTAAGAAGACAAATCAGAAGAGACAGAGAGAACCAAGATTCGCATTCATGACGAAAAGCGAGGTCGATCATCTGGAAGATGGATACAGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
ccttttg
- - - - - -aaaataa
- - - - - - - - - caatgaa
- - - - - - - - - - - - - acatgtg
- - - - - - - - - - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctggtt