Sequence
atgc intronic sequence ATGC exonic sequencegtaacttaccaaacaatacattggtttgtttgatgcataattctcatagaaatacataattctttcaaacaaaccatctagttcttttttaatggagaatctgagagttggattatcctgatggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG
Basic information
species | Glycine max |
transcript | GLYMA13G17880.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G17880.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 10
gtaacttaccaaacaatacattggtttgtttgatgcataattctcatagaaatacataatt-ctttcaaacaaaccatctagttcttttt-----taatggagaatctgagagttggattatcctga----tggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG
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-------------------------------gtaactttctcatgacacaaacacatcctttctttcagtttcagcttctattctttgttctgcataattgtaagttgtacatacataacaatctgaatcttacttctcagACAGTTGCTCTGGTCGGAGAAAGTGGGAGTGGTAAATCAACAGCAATCTCACTGTTGCAGAGATTTTATGACCCGGATTCAGGTCATATCACTCTGGATG
upper sequence: GLYMA13G17880.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g00900.t01 (Vitis vinifera), 3'ss of exon 10
gtaacttaccaaacaatacattggtttgtttgatgcataattctcatag--aaatacataattctttcaaacaaaccatctagttcttttttaatggagaatctgagagttggattatcctgatggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG
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gtaact-gtaacacttccagcaactctgtttcttgttctattcttttccccagatgcctaatt-------gaaagccatata-tatatatacatctgagaatctg----------tatcctgtt---tctcagACAGTTGCCCTGGTTGGAGAAAGTGGGTGTGGAAAATCCACTGTGATCTCATTACTGCAGAGATTTTATGATCCTGATTCAGGTCGTATAACACTGGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagttcttttttaatggagaatctgagagttggattatcctgatggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG
tcctgat putative branch site (score: 3)
ttcttttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttaccaaacaatacattggtttgtttgatgcataattctcatagaaatacataattctttcaaacaaaccatctagttcttttttaatggagaatctgagagttggattatcctgatggaaatcagACGGTTGCTCTAGCAGGCGAAAGTGGAAGTGGAAAGTCAACAGTAATCTCATTGCTGCAAAGATTTTATGAGCCAGATTCAGGTCAGATTACACTGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG