Sequence
atgc intronic sequence ATGC exonic sequencegtataataattaacatactaatgagaaaagttttaattacctccacttttgccattaactcttctcactttagtcatcacgcatacttatatatggattgccagGAAATATATGCAGCAGGGGATTAGTGTTTGGTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTA
Basic information
species | Glycine max |
transcript | GLYMA04G39710.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39710.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G39540.1 (Arabidopsis thaliana), 3'ss of exon 6
gtataataattaacatactaatgagaaaagttttaattacctccacttttgccatta-actcttctcactttagtcatcacgcatacttatatatggattgccagGAAATATATGCAGCAGGGGATTAGTGTTTGGTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTA
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-------------------------gtgcgtttccttctcatcaatgatcaatgatataatctcgatcatttggtaataatgtgtcc--aattttgtatt--cagGAAGTACATGCATAAAGGTATTAGTATTTGGCTTGATGTACCTCTAGAAGCCTTAGCGCATAGAATAGCTGCTGTAGGAACTGGTTCAAGACCATTGCTA
upper sequence: GLYMA04G39710.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01600.t01 (Vitis vinifera), 3'ss of exon 7
gtataataattaacatactaatgagaaaagtttta-attacctccacttttgcc---attaactcttctcactttagtcat-cacgcatac-ttatatatggattgccagGAAATATATGCAGCAGGGGATTAGTGTTTGGTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTA
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gtatgacaatggaaataatggtagcaaatctcttgtattttctgtttgtatggttggatttgcagtgcacatgttagtcgtgcaaactaacactgcttctggtgaatcagGAAATACATGGCAAAAGGAATTAGTGTCTGGTTAGATGTACCTTTGGAAGCCCTGGCGCGGAGAATCTCAGCTGTAGGAACTAATTCTCGACCCCTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccattaactcttctcactttagtcatcacgcatacttatatatggattgccagGAAATATATGCAGCAGGGGATTAGTGTTTGGTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTA
ttctcac putative branch site (score: 2)
atacttatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataataattaacatactaatgagaaaagttttaattacctccacttttgccattaactcttctcactttagtcatcacgcatacttatatatggattgccagGAAATATATGCAGCAGGGGATTAGTGTTTGGTTGGATGTACCTGTAGAAGCCTTGGCTCAGAGAATAACAGCTGTAGGAACTGATTCTCGACCACTTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG