Sequence
atgc intronic sequence ATGC exonic sequence...tggtcattttacctcatctaacttttttttttaaaatttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
Basic information
species | Glycine max |
transcript | GLYMA17G36310.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g01540.1 (Oryza sativa), 3'ss of exon 9
------------------------------------tggtc-attttacctcatctaactt--ttttttttaaaattta-aaactgt---gtatttatgcctaacactatg-----gttact----aattaatataattattttctt---------cacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
| || | | || | ||| || ||| ||| | | | ||||||| |||| || | | | ||| ||| | | || || | || |||| | | |||||||||||||||||| || || || |||||||| ||| ||||||| | ||| ||||||||||||||| | |||| |||||||||||||||||||| ||||
gtgtgtactctgtacttttttaattcttaacttgattaatctactatatcatatcctgtttcctttcctttggactctgtaaactgttaagtatgtaaggtagataatatatgcctgtttttatgaagttcatttcatgatttccattccatttaccacagACTGGTTTGATGGGCTGCACACTTTTATGAGATATGTATGTCACAAAAGTTGGTTAGGTGGATGGTTTCTGCCTCAGAAGAAGAGTTATTTTGCATTGCG
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 9
tggtcattttacctcatctaactt-ttttttttaaaatttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
|| | ||| | || | || | ||| | |||||| || || | | | | ||| | || | | || | |||| |||||||||||||| || || || ||||||||||| ||||||| ||| ||| | ||||| ||| || | || ||||||| |||||||||||| || |
tgatgttttggtatggaatacccaattatatttccatgacgctactgtgggttgatctattgaaaaacagg-actgacaaaatccacattgttttgagcagATTGGTTTGATGGACTGCACACATTCATGAGGTATATCTGTCATAAAAGTTGGCTGGGTGGGTGGTTCCTACCTCAGAAGAGGAGTTATTTTGCCTTAAA
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G135839_T01 (Zea mays), 3'ss of exon 9
-------------------tggtc--attttacctcatctaactttttttttt-------------aaaatttaaa----actgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
| || || || ||||| | | ||| ||| || | || ||| || || || | || | || | | | || ||| || |||| | ||||||||||||||||| || || || |||||||| ||||||||||||| ||||||||||||||||||| | |||| |||||||||||||||||||| |||||
gtttgtaaacgttcttggttaatctaataatatctcatattattttctttcttgtgcacttggtcaatgatgtaaggaatacgatgcatgtttgtgttttgctcctttcccaatttgtgatacttttttttataacagACTGGTTTGATGGGCTTCATACTTTTATGAGATATATATGTCATAAAAGCTGGTTAGGTGGATGGTTTCTGCCTCAGAAGAAGAGTTATTTTGCATTGCA
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 9
-tggtcattttacctcatctaacttttttttttaaa-atttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
|| | |||| || ||| | ||| ||| | | || || || || |||| || | |||||| | || |||||||||||| |||||| | || || ||||||||||| || |||| || |||||||| || ||||| |||||||||||||| || |||||||| ||||
gtgagtttcaggtctcagctgcatttatctttcaaataagttgtttcacataccagtggcttctttcatctcctctaactatattgattattat-tttgtagACTGGTTTGACGGACTCAATACTTTCATGAGGTATATTTGCCATAAGAGTTGGTTAGGCGGCTGGCTAATGCCCCAGAAGAAAAGCTATTTTGCCCTGCA
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 9
--tggtcattttacctcatctaacttttttttttaaaatttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
| || | | | |||| | | || || || | || | | | | || || ||| || | || | || | ||| || ||||| |||||||||||||| || || || |||||||| |||||||||| |||||||||||||| ||| | ||||| ||||||||||||||||||||||||||
ttttgttagtaaatctcaggtttttattcattaataagtcctcaatttcctttgcctagatagca-tatcactatggttcaaca-aaatgtttcttttacagATTGGTTTGATGGACTTCACACTTTCATGAGGTACATATGTCATAAGAGCTGGTTAGGTGGGTGGTTTATGCCTCAGAAGAAGAGTTATTTTGCTTTGCA
upper sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S72_100V6.1 (Physcomitrella patens), 3'ss of exon 7
tggtcattttacctcatctaacttttttttttaaaatttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
| | | | | | | || |||||| |||| | | | ||| || | | || || | | | |||| ||||||||||| ||| | || ||||||||||||||||||||||| || ||| | || || ||| | | || ||| |||| || || ||||| ||||
tctgtgtgtgtctgtgtttgaaattaaaaattaaaaaacaaaaaaacaaaaaaacattagagtacttggctaacattgaagtggtttcatctgtgtgcagATTGGTTTGATGGGCTCGATACATTTATGAGGTATATATGTCATAGGAGTTGGCTTGGAGGTTGGTTGTTACCTCAGCAGAAAAGCTACTTTGCATTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
ttattttcttc CT-rich tract
taacactatggttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtcattttacctcatctaacttttttttttaaaatttaaaactgtgtatttatgcctaacactatggttactaattaatataattattttcttcacagACTGGTTTGATGGACTCCAGACCTTTATGAGGTATATATGTCATAGAAGCTGGTTAGGTGGATGGCTCATGCCCCAGAAGAAGAGTTATTTTGCTTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - -aactgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cctaaca