Sequence
atgc intronic sequence ATGC exonic sequence...gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttttacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
Basic information
species | Glycine max |
transcript | GLYMA10G43230.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G139583_T02 (Zea mays), 3'ss of exon 8
gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttttacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
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------------gtaacttctaatcttatgtttgtccttagaaaaatggta-gtgtttcactagtctaatatgccttt-tttcactttcattacgg-cagTCCAGAGTTGTGCAATGTGCAGTTGGTGAACGATCGTACCATATATTTTATCAGCTGTGTGCTGGTGCACCTGCATCTCTAAGAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 9
gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttttact-tggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
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-gtaaattcctcaatatttttgctgcttc-agtttctttcatgttgaaaaatgatttttaatattgacatcctttcatgttctgttgtcacactttcatagTCAAGAGTGGTTCAATGTACGGAAGGAGAAAGGTCATATCATATATTCTATCAACTTTGTGCTGGGGCTTCACCTACACTTAGAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
---gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttat-gtgattgacccttgttttacttggt-atgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
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gtagcttctttggatga---ttttatttgcttgatttc-tttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttt-tacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
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--------------gtaattctttcttt--atctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagtatgtgtccattttatgtgattgacccttgttttacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
gattgac putative branch site (score: 3)
attttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttttacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - tgctgga
- - - - - - - - - ttcattc
- - - - - - - - - - - - - - - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgattg