Sequence
atgc intronic sequence ATGC exonic sequencegtgattaattgtatgacacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
Basic information
species | Glycine max |
transcript | GLYMA19G42530.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G108416_T01 (Zea mays), 3'ss of exon 8
gtgattaattgtatgacacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
| |||| |||| | || | |||| || || | | | | | ||||| | | | | | || | ||| | ||||||| ||||||||||||||||| |||||||| || | ||||||||||| | || | ||| ||||||| |||| || | || || ||| | ||||
--------gtatatgtcact-ggtaccttgtggcatgccaccattattagaacatagtaaactc-tctacattctttc--tctaataatctt-tcttgtaa------agGTTTCAGTGTTTGATTCAGTTGTACAAGGAGGAGATGCTGTTTGGGAAGGTTTACGTATATATGATGGAAAAGTATTCAAATTAGATGAACATTTGGACA
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 18
gtgattaattgtatgacacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttat-acagattctcatggtttgaaattattaccctgtgatctatc---agGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
|||| | || | || || | | || | || | || || ||| | ||| ||||| || | ||| | |||||||||| ||||| || || || ||||| |||||||| || |||||||| ||||| | || || || || ||||||||||||| || |||||||||
---------------------------gtgct-tgagccatacatggatctctgtttgttatttcttgtttatgcttatgttctgatgttatttgtctttattcttgcttaagGTTTCTGTTTTTGACTCGGTCGTGCAAGGCGGTGACTCTGTATGGGAAGGTCTTCGTATATACAAAGGGAAAGTATTTAAGCTTGAAGAACATCTAGACC
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 8
--gtgattaattgtatgacacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
||| || | | || | |||| | | | ||||| | || || | || |||| ||| | | | | | | | | | | |||||||||| ||||| || ||||| ||||| |||||||| || |||||||||||||| | || || ||||||||||| ||||||||||| ||||||||
gtgtgcttgaa-atgtggaag--aaaacttaacagctcactgtttgttgatttgcattttgaa----cactgatt---atgttcta----tttcttcttatt-tttgtaagGTTTCTGTTTTTGACTCGGTTGTTCAAGGCGGTGACTCTGTATGGGAAGGACTTCGGATTTACAAGGGAAAGATATTCAAGCTTGAGGAACATCTAGATC
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 18
gtgattaattgtatgacactt--aaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
|| | | | || | || | || | ||| | | || | | |||| |||| |||| ||| || ||| | | | | ||||||| |||||||| || ||||||||||| ||||| ||||| ||||| || |||||| | || || || ||||||||||||||||| |||||| |||| |
gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttatgt---ttctgatgc------ataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S180_110V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------gtgattaattgtatga-cacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatct-atcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
| | ||| ||| || | |||| || | || || ||| | ||| || || | | | || | | || | | | | | | ||||||||||||| |||||||| |||| |||||||| || ||| |||||||||||||| | ||||| || || | || ||||| ||||||||||||||||
gttagtgatgacaattctattgctccctttcgaaataactcaggaactttagtaaggtctctattttatattcaggtgtaagtatgtt-taagcacttggttgag-aagttttgaatgacgagttgtttttagtagtgcttatcagacatcattttcttggatcagGTTTCTGTATTTGATTCGATTGTGCAAGGAGGAGATGGAGTGTGGGAAGGACTTCGGATTTATAAGGGTAAAGTGTTCAAGCTAGAGGAGCATCTAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
tttgaaattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattaattgtatgacacttaaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA