Sequence
atgc intronic sequence ATGC exonic sequence...catattgggaataatttatatagttttattttggaaaggggggttgaatatttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
Basic information
species | Glycine max |
transcript | GLYMA11G07950.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g35890.1 (Oryza sativa), 3'ss of exon 9
--------------------catattgggaataatttatatagttttattttggaaaggggggttgaatatttcttcactttcatct--ttaaaaaaaaaaaaaaaaaaactt--tgct--tgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
| || ||| ||| |||| |||| || | || ||||| | || |||| | || ||||| || | || ||||||||||||||||| ||||| || | ||||||||||||||| ||||| ||| ||||||| ||| | ||||||||||| ||||| || |||||||||||
gttcacagaattctcttctgtgtctttcaaatcattctacaagttcatttttctctctctttcttttgaaacaagacatcttcatttcatttaaaatgatttctgaacaacttcttggtggtgtagCAAGGGGAGAAATGGCCATATCCCATACAGAGATTCAAAGCTCACCCGGATACTGCAGTCATCACTGGGAGGCAATGCAAGAACAGCAATCATCTGCACG
upper sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g43400.4 (Oryza sativa), 3'ss of exon 8
catattgggaataatttatatagttttattttggaaaggggggttgaatatttc---ttcactttcatctttaaaaaaaaaaaaaa--aaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
| | | |||||| | || ||||| | || || || | || | | | | | || | || | | | |||||| ||||| |||||||| ||||| || | ||||||||||||||| || || ||||| ||||| || || ||||||||||| ||||||||||| ||||||||
--tggatgaactaattt---tgaattccttttgcgcgtcgcaattcaactctttgattgcattattaccatccaatttagtctaagctatatgttcatgttgcagTAAGGGAAGAAATGGCCATATCCCCTACAGAGATTCAAAGCTGACTCGTATATTACAGTCTTCCTTGGGAGGCAATGCAAGAACTGCTATTATCTGCACA
upper sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G015395_T01 (Zea mays), 3'ss of exon 7
--------------------------catattgggaataatttatatagtt----ttattttggaaaggggggttgaatatttcttcactttcatctttaaaaaaaaaaa---aaaaaaaactttgct--tgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
| | | | |||| | | || | || || | | ||| | |||| | || | || || || | || | || || ||||||||||| |||||||| ||||| |||| ||||||||||||||| || |||||||||||||| || ||||| ||||| || ||||||||||| ||||||||
gtctgttaaggtgctctagccatctgtctttggcggataaaac-cacaattccaatcatattagtgctacttttgcaatttgtcttgagccaaatgatacaacaagtgaatctggacaactcatttctgatgcagCAAGGGAAGAAATGGGCATATCCCTTACAGAGATTCAAAGCTCACTCGCATATTGCAGTCATCTTTAGGCGGCAACGCGAGAACTGCTATTATCTGCACA
upper sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G338928_T02 (Zea mays), 3'ss of exon 4
-------------------------------------------catattgggaataatttatatagttttattttggaaaggggggttgaata--tttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgct-----tgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
|| | | ||| || | |||| ||| ||| | || | ||| ||| || | || ||| | ||| | | | || | ||||||||||| |||||||| ||||| |||| ||||||||||||||| || |||||||||||||| || || || |||||||| ||||||||||| ||||||||
gtgcgttaaggtggtctagtcatctgtctttagcagagaaaaccacaatccaaatcatat---tagtgttacttttgcaatttttctcgaacccccttcaacattacaatttttggacgcctaaatctagacagttcattcttgatgcagCAAGGGAAGAAATGGGCATATCCCTTACAGAGATTCAAAGCTCACTCGCATATTGCAGTCATCTTTGGGCGGCAATGCGAGAACTGCTATTATCTGCACG
upper sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 8
-catattgggaataatttata-tagttttatt-ttggaaaggggggttgaatatttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
|| | | || || | ||| ||| ||| | | | |||| | | | ||| | | | | | || |||| |||||||| || |||| |||||||||||||| ||||||||||| |||||||||||||||||||||| |||||||||||||| | |||||||||||| || ||
gaatttccctttcatttcttagtggttgtatagttgaattctgcagctgaaaggat---aattatcaaatctgctagttatataattgggtatttggatgcagCAAAGGAAGAAGTGGACATATTCCTTATAGAGATTCAAAATTAACCCGCATATTGCAGTCCTCCTTAGGAGGCAATGCCAAAACTGCTATCATATGTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatatttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
ctttgctt CT-rich tract
tttcttcactttcatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catattgggaataatttatatagttttattttggaaaggggggttgaatatttcttcactttcatctttaaaaaaaaaaaaaaaaaaactttgcttgcagCAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATATTGCAGTCCTCATTAGGAGGCAATGCTAGAACTGCTATCATCTGCACC
- - - - - - - - - - - - - - - - - - -ggggggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa