Sequence
atgc intronic sequence ATGC exonic sequencegttaaaaaaattacgaggatgattttattatttccaaattttgcatgtagaagtgattttgttttgcttgccgtactttgacacatgcatgagaagactaatttactgtgagtgttttgcaatttgctatgtctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG
Basic information
species | Glycine max |
transcript | GLYMA13G41060.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G41060.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g04570.t01 (Vitis vinifera), 3'ss of exon 2
gttaaaaaaattacgaggatgattttattatttccaaattttgcatgtagaagtgatttt---gttttgcttgccgtactttgacacatgcatgagaag-actaat-ttactgt--gagtgttttgcaatttgctatg---------tctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG
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-----gtatcatatcaggattatcat-ttgtttagaaataataacctgctaagtcatttatcaatcttcacagctaattctgaaggcttgcatgatattcactgacatcactgttgaattgttttttggtctgatgcaatgccaacctttagGCCGGATTTGCAGGAGATGATGCTCCAAGGGCTGTGTTTCCTAGTATTGTGGGTCGTCCACGGCACACTGGTGTGATGGTTGGGATGGGCCAGAAAGATG
upper sequence: GLYMA13G41060.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
gttaaaaaaattacgaggatgattttattatttccaaattttgcatgtagaagtgattttgttttgcttgccgtactttgacacatgcatgagaagactaatttactgtgagtgttttgcaatttgctatgtctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG
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---------------------------gtagtatcaaatctc-----cacaaccgtcttctgtgtctaggtcatg-ttggacctgtgtttaggccaatcaacatg-taggagtaatatggtgcatgtaatgc--agGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacatgcatgagaagactaatttactgtgagtgttttgcaatttgctatgtctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG
gactaat putative branch site (score: 2)
actaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaaaaaaattacgaggatgattttattatttccaaattttgcatgtagaagtgattttgttttgcttgccgtactttgacacatgcatgagaagactaatttactgtgagtgttttgcaatttgctatgtctagGCTGGTTTTGCTGGAGATGATGCTCCGAGGGCAGTGTTTCCAAGCATTGTTGGTCGGCCACGTCACACCGGTGTGATGGTTGGGATGGGGCAAAAGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG