Sequence
atgc intronic sequence ATGC exonic sequence...tttgtctttttgccccctgatattatagttattatacaaaggtacaatttgatcattgacatcctaaactcgtttaattaaaagagaatattttctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
Basic information
species | Glycine max |
transcript | GLYMA03G00510.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G00510.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G30290.1 (Arabidopsis thaliana), 3'ss of exon 12
tttgtctttttgccccctgatattatag-ttattatacaaaggtacaatttgatcattgacatcc-taaactcgtttaattaaaagagaatattt-tctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
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-----------gtaatcagatatctcaaatcattataatactttgttcattaatattggatatacacatatttgattgatttgt-gtgtgtatgtgtgtgcagACATATATGGACTCAGAGATAAGAGCTATAATGGCACAATACATGCCTCTTGATAATAATCCCAATACTCAACTTTCTTCTCAACTAGAGTTGTAA----
upper sequence: GLYMA03G00510.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G30290.2 (Arabidopsis thaliana), 3'ss of exon 12
tttgtctttttgccccctgatattatag-ttattatacaaaggtacaatttgatcattgacatcc-taaactcgtttaattaaaagagaatattt-tctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
| | ||||| | | |||||| | | || || | || || | | | | | || ||| | | ||| | | |||||| |||||||||||| |||||||| || || ||||| ||||||||||| | |||||| | || | | | | |||| || |
-----------gtaatcagatatctcaaatcattataatactttgttcattaatattggatatacacatatttgattgatttgt-gtgtgtatgtgtgtgcagACATATATGGACTCAGAGATAAGAGCTATAATGGCACAATACATGCCTCTTGATAATAATCCCAATACTCAACTTTCTTCTCAACTAGAGTT--------
upper sequence: GLYMA03G00510.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0058g01360.t01 (Vitis vinifera), 3'ss of exon 11
tttgtctttttgccccctgatattatagttattatacaaaggtacaatttgatcattgacatcctaaactcgt-ttaattaaaagagaatatt--ttctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTC---ATGAAGGTGTCTAGAAGT
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--tgcatggatacctag-attaatgtggtacgtgcctgtaattgctatatggaaataggatcaatatgattgtgttaatgacaacttccttttgctgttgcagAGATACATGGATTCTGAGATTAGGGCAATCATGGCACAGTACATGCCTTTGGATAATCAAGGAGAGATTCCAAATCATGTTCCCCATGGGGACATTTAGA---
upper sequence: GLYMA03G00510.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S227_69V6.1 (Physcomitrella patens), 3'ss of exon 13
tttgtctttttgccccc-tgatattatagttattatacaaaggtacaatttgatc--attgacatcctaaactcgtttaattaaaagagaatattttctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
||| | | | | | || | | | || ||| | || || | | | | | | ||| |||| | | | | ||| ||| |||||||| |||||||||||||| ||||| || ||||||||| | || | | || || | || || | | || |
-ttgcatgtctccacaaatggagatctctcttttgtactagttcgtaaagtgcttgaacttatttgattaacggatttagcttgtcggtgctgtgga--acagTCATACATGGACTCGGAGATAAGGGCAATAATGGCGCAGTACATGCCACTCGACAGCTCAAGTGAAGTTAATCACCATCTGACCGAGGAAGCGTAAAGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttgatcattgacatcctaaactcgtttaattaaaagagaatattttctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
tattttct CT-rich tract
tttaattaaaagagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtctttttgccccctgatattatagttattatacaaaggtacaatttgatcattgacatcctaaactcgtttaattaaaagagaatattttctgcagAGATATATGGACTCTGAGATAAGGGCAATTATGGCCCAATACATGCCATTGGATAATCAACCAGAGATTTCTAGTCAAGCTCATGAAGGTGTCTAGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - ccccctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaagaga