Sequence
atgc intronic sequence ATGC exonic sequence...atttcactgcttatctgcatctacgatctaataggttctagacttatagttactattgggtaggcatttcatgatagttttctttaccttgtatgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
Basic information
species | Glycine max |
transcript | GLYMA08G43140.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G43140.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G076387_T01 (Zea mays), 3'ss of exon 7
atttcactgcttatctgcatctacgatctaataggttctagacttatagttactattgggtagg-ca--tttcatgatagttttctttaccttgtatgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
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tgtgtgatgatgtcctatatctacatttctgtcaatgcaattcttatacttgctaagtaataaaacagtttttgtgatgcttttttttattatttct---cagTCTTGGTGCTGGATGCTCTCAACTTCTATCAGATATGCAGGCTTTCAAG
upper sequence: GLYMA08G43140.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G55060.2 (Arabidopsis thaliana), 3'ss of exon 7
atttcactgcttatctgcatctacgatctaata----ggttctagacttatagttactattgggtaggcatttcatgatagttttctttaccttgtatgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
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aatagacgtattatctggctgaataatatataattccgtttcgttattcagacatccaattatcttgatagattg-gattattgtcttt--cttatg-gttcagCATGGGGGCTGGATGTTCTCAACTCTTGTCTGACATGCAGGCTTTCAAG
upper sequence: GLYMA08G43140.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0090g00690.t01 (Vitis vinifera), 3'ss of exon 8
atttcactgcttatctgcatctacgatctaataggttctagacttatagttactattgggtaggcatttcatgatagttttctttaccttgt-----atgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
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---gaagcaagtgtttcc-tctactaaa-gataaatattctttttgttgttcctttaatctaggcattctttgacaatttgtctcattttttcccctatgctcagTGTTGGTGCTGGATGTTCTCAACTACTTTCAGACATGCAGGCTTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagttactattgggtaggcatttcatgatagttttctttaccttgtatgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
ttttctttaccttgt CT-rich tract
ttttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcactgcttatctgcatctacgatctaataggttctagacttatagttactattgggtaggcatttcatgatagttttctttaccttgtatgaccagTGTTGGTGCTGGATGCTCTCAACTCCTCTCTGATATGCAGGCTTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - cactgct
- - - - - - - ctgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatttc