Sequence
atgc intronic sequence ATGC exonic sequence...agagcttatgatcttatgccaccttctatagagatgcagagtaaaaatcacataacgaaaaaaacttttcaaagatatgttgatcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
Basic information
| species | Glycine max |
| transcript | GLYMA02G10790.1 |
| intron # | 8 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 3'ss of exon 8
------agagcttatgatcttatgccaccttctatagagatgcagagtaaaaatcacataacgaaaaaaacttttcaaagatatgttgatcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
| |||| | || || || || | | |||| | | | | ||| || || | || | |||| |||||||||||||| ||||| | || ||||| ||||||| || || || || ||||| ||||||||||| ||||||||||| ||||||||||| || || |
agtcccacagctcaatataacatttcaattttgcttccctaatgactgataaattccttggtcatagaaaattc------attactgagtccttttgatctttcagGTTATTGGAATTGATTTGCTGTCACAATCACTGTTACCGGCGATCGTAGAACTTGCAGAGGATAGGCACTGGAGGGTTCGGCTTGCAATAATTGAGTACA
upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 8
-------------------------------------------------------------------------------agagcttatgatct-tatgccaccttctatagagatgcaga----gtaaaaatcacataacgaaaaaaacttttcaaagatatgttga---tcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
|||| || ||||| | || | | || || | | || | | | | ||| || || | || ||| | | |||| |||||||||||||| | ||| |||||||||| || ||||||| ||||| || ||||| ||||||||||| ||||| || || ||||||||||| || || |
gtcagtaccattttttttgttattagatttatttgccttttcctttctgttttagatttttaatgtaatcttttataagctagctagccattagtatgctagatttttttaagttgatgtccttgaaagccttgcctttctcttcaaaattatctgatgattgctgatttttgttttgatctttcagGTTATTGGAATTGACTTGCTATCTCAATCACTGCTACCAGCAATTGTAGAACTTGCAGAGGATAGGCACTGGAGAGTCCGGCTTGCAATAATTGAGTACA
upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G122135_T01 (Zea mays), 3'ss of exon 8
------------------------------------------------------------------------agagcttatgatcttatgccaccttctatagaga-tgcagagtaaaaatcacataacga--aaaaaacttttcaaagatatgttgatcaagtcat--tcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
|||| | | | || | || | || | || |||| | | | | ||||| || ||| || || || | |||| ||||||||||| || | || ||||| ||| | || ||||||||||||| || ||||| ||||||||||| ||||| || || ||||||||||| || || |
gtcagtaccattttttgttactggatttctttgccttttccttgccgttttggatctttgaagtcttgtttaccagctattagtatgctggaatttttttaagtcactgtcctgtaagcctggcctccctcttcaaaaaagttctgttgattggtgaattttgttttgatctttcagGTTATTGGCATTGACTTTTTATCCCAAACACTGCTACCAGCCATTGTAGAACTTGCAGAGGATAGGCACTGGAGAGTCCGGCTTGCAATAATTGAGTACA
upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 8
agagcttatgatcttatgccaccttctatagagatgcagagtaaaaatcacataacgaaaaaaacttttcaaagatatgttgatcaagtcattctt----gcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
| | ||| | ||| | | | ||| || | | || | | | | | || ||| | | || || ||||||||||||||| || | |||||||||| |||||||| |||||||| || |||||||||||| |||| ||||| || ||||||||||||||||| |||
----------gtttgttgcatctctcttgtgtgctttaga-tactacttttattgc--------ttccttatttagttggtgactgaattatcttttacggcagGTTATTGGAATTGATCTACTATCTCAATCCTTGTTACCGGCCATTGTAGAACTTGCTGAGGATCGGCACTGGAGAGTCCGACTTGCAATAATAGAGTATG
upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 7
agagcttatgatcttatgccaccttctatagagatgcaga---gtaaaaatcacataacgaaaaaaa-cttttcaaagatatgttgatcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
|||| | | | || ||| | || || | | | | | | | | ||| || || | ||| |||||||||||||||||||| || | || || ||||| | ||||| ||||||||||||||||| |||||||| ||||||||||||||||||||||||||||| ||||
----tccatgacaagcttcagggctttaaagatgtccatgcatgtgagaggagtcttatgtgcatgttcccctttcagacattttaaataagcgattcttgcagGTTATTGGAACTGATCTATTGTCCCAATCCCTATTACCGGCCATTGTTGAGCTTGCAGAGGATAGACATTGGAGGGTTCGACTTGCAATAATAGAGTATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcacataacgaaaaaaacttttcaaagatatgttgatcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
tcattctt CT-rich tract
aaaaaaacttttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagcttatgatcttatgccaccttctatagagatgcagagtaaaaatcacataacgaaaaaaacttttcaaagatatgttgatcaagtcattcttgcagGTTATTGGAATCAATTTGTTATCTCAATCTTTGTTACCAGCCATTGTTGAGCTTGCTGAGGATAGGCATTGGAGGGTTCGACTTGCAATAATAGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- -gcttatg
- - - - - - - - - ccacctt
- - - - - - - - - - - - - - - - gatgcag
- - - - - - - - - - - - - - - - - - - - - - -aatcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgat
