Sequence
atgc intronic sequence ATGC exonic sequencegtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
Basic information
species | Glycine max |
transcript | GLYMA02G17410.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 20
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
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-------------------------------------------------------gttactctccatctcatcatattgcaaacatattatcatactca--cacagttggaatctcacagtgctttactcttaaattactttttccttcttagGATGTTGTCACAGAGAACGAATTTGAGAAAAGGCTTCTGGCAGATGTTATACCACCTAATGACATTGGAGTCACCTTTGATGATATTGGAGCCTTGGAAA
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 20
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
| ||| || | ||| | ||||| || || | ||| | | || | || ||| || || | | | || | || ||| |||||| | | |||||||||||||||||| || |||||||||||||||||| || || ||| || || ||||| ||||| || ||||| || || ||||
---------------------------------------cttcaccttctctggtcaa----tgcatgcctgaacgtgt------agtgttgcagcattat-atcttttaaaatgcatggagcttatgaatcttgctataacaattt---cagGATATTGCTACTGAGAATGAATTTGAAAAGCGACTTCTTGCTGATGTTATACCCCCGGACGAAATAGGTGTCACCTTTGAGGACATTGGGGCATTGGAAA
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
|| | | || || || |||| | | ||| | | | ||| |||| || ||| | | |||| |||||||| || || |||||||| |||||||||| ||| | || |||||||| || |||| || ||||| || || ||||||||||||||||| || || |
--------------------------------------------------------gtacactctcccaatattgtcatg-----agttctggtgattcctcaagtt---agttgctgaatactc-----tatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 19
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatt-----tgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
||| || ||| ||| | | ||| | | || | | ||| | || |||| | | | || || |||||||| ||||| ||||||||||| ||||||||||| || | || || ||||| |||| ||||| || || | || ||||||||| ||||| ||||
---------------------------------------------------------------------------gtaattatatagaaatcttatgctattttgactccaaattaacttctggattttaacaattattatgcta--tattatttcagGATGTTGTTACAGAGAATGAATTCGAGAAAAAACTACTATCAGACGTCATTCCTCCAAGTGATATCGGTGTTTCTTTCAGTGATATTGGGGCTTTGGAAA
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 19
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
| | || || || || | | |||||| || | | | || ||| || | || || | | ||||| |||||||| ||||||||||| ||||||||||||||||| | | ||||| ||||| || | |||||| || || | |||||||||||||||||| | ||||
---------------------------------------------------------------gtaatatta-tgttacttaatttctttcttc-ccaagctgcctagtaagttccgga-ttaagagttg-gtttactatactgttt---cagGATGTTGTTACTGAGAACGAATTTGAGAAAAAACTGTTGTCGGATGTCATTCCACCTAGCGATATAGGTGTTTCCTTTGATGATATTGGAGCTCTGGAAA
upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 19
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
|| | || | | | ||| | | || ||| |||| | | | | | | | | || | | | | | | | | | | ||| | | ||| | | |||| |||||||||||||||||||||||||||||||| ||||||||| | ||||||||||| || | |||||||| || || |||||||||||||||||||||||||
------------------gtaaagttgcagatgtctctata----aattcatggctctattctctaaaaaaa-----acctcacaaattaatccagtctatgaagttatttaatcacatgttggaatttttatgccaaaa-----tttttcagGATGTGGTTACTGAGAATGAATTTGAGAAGAAACTTCTTTCAGATGTTATTCCACCTAGTGATATTGGAGTAACTTTTGATGATATTGGAGCTTTAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
ttgtttttcc CT-rich tract
tttgaattgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT