Sequence
atgc intronic sequence ATGC exonic sequencegtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
Basic information
species | Glycine max |
transcript | GLYMA13G38980.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 4
gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgt--agGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
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--------------------------------------------------------gttttgtagttcagga--acttgttcttaccttgtttcttctgtttga-acttatttagttgacaaggtgagttatgcagGGTTGTTATGTCTGCATTGTCACGGGCTATTGTGAAGGTGGAGACAT
upper sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G074262_T01 (Zea mays), 3'ss of exon 4
gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
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----------------------------------------------gttggttcttcatgaacatgcttctgt-atttgccttttatttggttccgtcctctgttacctcaacgcatg---agttttg--atagGGCTGCTATGTTTGCATTGTGACGGGATACTGTGAAGGTGGCGATAT
upper sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaa-tggttttatttatttattacttaagtatgtttttggtt---gtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
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-------------------------------------------------gtaagttttac-atcactttgatttttatggatttaaagtagatttggtta--aaggattttgataggagctagatttgaaaaatgcagGGTTGCTATGTTTGTATTGTCACTGGATACTGTGAAGGAGGAGACAT
upper sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
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-------------------------------------gta---ggtcctggaaattctagttt----tttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgaga-gctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
taatggttttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA