Sequence
atgc intronic sequence ATGC exonic sequence...ttgccttataaacaaaattcatagttttaattaaaagaattttgtaacaagaatcattttagcttttgaagatatataacttcctttttcatctatatagGACCGGTAGAGCTTGCTGCTGCAGGAGTTTCCATTGCTTTATTCAACCAAGCTTCAAGGATTACCATATTCCCTCTTGTCAGTATTACAACTTCCTTTGT
Basic information
species | Glycine max |
transcript | GLYMA12G36610.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G36610.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0064g00940.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------ttgccttataaa-----caaaattcatagttttaattaaaagaattttgtaacaagaatcattttagcttttgaagatatataacttcctttttcatctatatagGACCGGTAGAGCTTGCTGCTGCAGGAGTTTCCATTGCTTTATTCAACCAAGCTTCAAGGATTACCATATTCCCTCTTGTCAGTATTACAACTTCCTTTGT
||| | | || ||| || | || || | ||| | | | || | | || | || || | | | ||||| ||||| ||||| ||||||| ||||||||||||||| | ||||| |||||||||||||| || ||||||| ||||||||||| |||||||| |||||
gtctgcttaatttatgttttctttctttggatgctgaaacttgtcgggttctggacttcatttttgtgattccctcaacgatagggaccataatct---gatgtagagaatatctgatcgattttgcatagGCCCGGTGGAGCTAGCTGCTGTGGGAGTTTCCATTGCTATCTTCAATCAAGCTTCAAGGATAACTGTATTCCCACTTGTCAGTATCACAACTTCTTTTGT
upper sequence: GLYMA12G36610.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0064g00930.t01 (Vitis vinifera), 3'ss of exon 2
-----ttgccttataaacaaaattcatagttttaattaaaagaattttgtaacaagaatcattttagcttttgaagatatataacttcctttttcatctatatagGACCGGTAGAGCTTGCTGCTGCAGGAGTTTCCATTGCTTTATTCAACCAAGCTTCAAGGATTACCATATTCCCTCTTGTCAGTATTACAACTTCCTTTGT
| || || || |||| || | ||| | | | | ||| | || | | || | || | ||| || ||||| | ||||||||||| ||||||||| || || | || || |||||||||||||| | ||||||| ||||||||||| |||||||| || ||
ttttatgattttggtaaaggcatgtgatgtttgaaggggaggaaggg-gcggtatgtaatctttaaactaatttccacgtaatgatgaacttctttccta----gGTCCGGTGGCGCTTGCTGCTGTAGGAGTTTCTATCGCAATCTTTAATCAAGCTTCAAGGATAGCGGTATTCCCGCTTGTCAGTATCACAACTTCTTTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaagaatcattttagcttttgaagatatataacttcctttttcatctatatagGACCGGTAGAGCTTGCTGCTGCAGGAGTTTCCATTGCTTTATTCAACCAAGCTTCAAGGATTACCATATTCCCTCTTGTCAGTATTACAACTTCCTTTGT
cttcctttttcatcta CT-rich tract
ttttgaagatatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgccttataaacaaaattcatagttttaattaaaagaattttgtaacaagaatcattttagcttttgaagatatataacttcctttttcatctatatagGACCGGTAGAGCTTGCTGCTGCAGGAGTTTCCATTGCTTTATTCAACCAAGCTTCAAGGATTACCATATTCCCTCTTGTCAGTATTACAACTTCCTTTGT
-tgcctta
- - - - -aaacaaa
- - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - -aacaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttttg