Sequence
atgc intronic sequence ATGC exonic sequencegtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
Basic information
species | Glycine max |
transcript | GLYMA03G36930.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
gtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
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-------------------------------------------------------gtacagaatttacacagccatgtaattgtgtgaaacgtgcatagtttttttttcagttt---tccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G03000.1 (Arabidopsis thaliana), 3'ss of exon 9
gtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaac-agtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
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------------------------------------------------gtaagttatatttcttcttccctaggagaagcatattgagtctttggttctgattcttaaactagtgtgttttct--tcaattgcagGCAAGGTCAGCGCGACCTTGTGTGATCTTCTTTGATGAGCTTGATTCTCTTGCTCCAGCTCGAGGTGCTTCTGGTGATTCTGGAGGAGTCATGGATCGAG
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv07s0104g01610.t01 (Vitis vinifera), 3'ss of exon 10
gtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
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--------------------------------------gtaaagatat-tcttatgtgattagaatgccttgttttgctct-aacatgttttggttgacctcacaattctg-tgacattgggcatcctttgtagGCAAGGTCAGCACGTCCATGTGTTATCTTCTTTGATGAACTTGATTCTCTTGCTCCAGCCCGAGGTGCCTCTGGGGATTCTGGGGGTGTTATGGACAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
ttttgat putative branch site (score: 4)
aaatgaaattcaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataataatatttcagtttcttttatctaaataatttctcaagttaaattaaatgtatttgtgtctctttgctgtgaactcaacagtttttagaacagattttgatccaaatgaaattcaaaataattcacagGCCAGATCAGCATGTCCATGTGTCATCTTCTTTGATGAGTTTGATTCTCTTGCACCAGCTCGGGGTGCTTCTGGAGATTCTGGGAGCGTTATGGACAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT