Sequence
atgc intronic sequence ATGC exonic sequence...aattaatgctaagtaactaaaaatttttgaccgccctacttctccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g40740.4 (Oryza sativa), 3'ss of exon 3
-----------------------aattaatgctaagtaac-taaaaatttttgaccg--ccctacttc--tccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
| | | || | | | | || | | || ||||| |||| | | || |||| | || || ||| | | || || |||||||| |||||| |||||||||| ||||| || | ||||||||||||||||| || || || ||||||||||| || || || ||||| || |||||||||
gtgatctcttgcaattttttagaacattgtatcaacttccatcatgatagtgtatcgagttttactttaagccatatatccac-tgagtgatttgcatattattaccttc-acttgatttcttaatagGTTAAGAAAACTGGGATGCCACCTGGCCCCAGAGCTGGGTTTTCTATGTGCGTTCACAAGAAAAGGGCTGTTCTTTTCGGTGGTGTGGTAGATATGGAAA
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 10
----aattaatgctaagtaactaaaaatttttgaccgccctacttctccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
| | || || | || | | | ||| | | || ||| | | ||| || ||| |||| | ||| | | |||| | | |||| |||||| ||| ||||||||||| ||||||||||||||||| |||||||| ||||| | ||||||| |||||||||| ||||| || ||||| ||||
tacaactgaaaaataggctcatacacactgaaaaccatgc-attttattatctttttgtacaactg--gtttat-tttcatcatcttttctcccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGAAGGGCTCTGCTATTTGGTGGTGTTGTGGATATAGAAG
upper sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G18170.1 (Glycine max), 3'ss of exon 10
--aattaatgctaagtaactaaaaatttttgaccgccctacttctccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
| || | | | | | | | | || ||| | | ||||| | | | | | | | | |||| | | |||| |||||| ||| ||||||||||| ||||||||||||||||| |||||||| ||||| | |||||| |||||||||| || || || ||||| ||||
taggctcatacacacccgatgactcactgaaaacagtgcattttgttatctttttgtacaactgatttttttttcatcatcttt--tcccccttcatgacagGTTAAGAAAAGTGGAATGCCTCCTGGTCCTCGTGCTGGGTTTTCCATGTGTGTTCATAAGAGGAGGGCTCTGCTATTTGGTGGCGTTGTGGATATAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
ttctgat putative branch site (score: 3)
tttctacttctgattt CT-rich tract
tttctaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattaatgctaagtaactaaaaatttttgaccgccctacttctccatcaaagagcatgcctgatgtctatgtttctacttctgattttcctttctaatagGTGAAGAAATCTGGGATGCCTCCTGGACCTCGTGCTGGGTTTTCTATGTGTGTCCATAAAAAAAGGGCTGTGCTATTTGGGGGTGTAGTTGATATGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - aactaaa
- - - - - - - - - - - - - - - ccgccct
- - - - - - - - - - - - - - - - - - - - - -ccatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - catgcct