Sequence
atgc intronic sequence ATGC exonic sequencegtaatataaaaatatgatactatgtcctgatgaagcaatgtgttatacgttttgatagatatatgtgatttccttttctgaaattattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
Basic information
species | Glycine max |
transcript | GLYMA14G40270.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatataaaaatatgatactatgtcctgatgaagcaatgtgttatacgttttgatagatatatgtgatttccttttctgaaattattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
|||| || | | |||| || | | | | || | | || || || || | |||| | || | | | |||| || |||||||| |||||||| | || ||||| || || |||||||||||||||||||| || || |||||||| ||||||||||||
gtaacatcgatac-cactact-tgaattagt-atcctatttttgctatgtactgcccactaagttgtatttaatgttttc---ctctcagGTTGGAAAAAATCTGCATGTTCTAGGACAGATAGAAGGTGTTGACCTTGAGATGTACAAAGAGACTGTTCTTCCTAGGGTCTTAGAGCAG
upper sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 6
gtaatataaaa--atatgatactatgtcctgatgaagcaatgtgttatacgttttgatagatatatgtgatttccttttctgaaattattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
|||| || | | || || |||||| | | | | | | || | | |||| | | | | | || ||||| ||||| |||||||||||||| ||||| || ||||| | |||||||| ||||| ||||| || || ||||| || ||||||||||||
gtaagatcagataatctgggtctatgtaataccactagttggagcagtgtctatagagaagt-tatggtgctgtcctgtattttctttgtagGTTGGGAAGAATCTACATGTTCTCAGTCAGATTGAGGGTATTGACCTTGAAATGTATAAAGATACTGTTCTTCCCAGGGTCTTAGAGCAG
upper sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S313_104V6.1 (Physcomitrella patens), 3'ss of exon 6
--gtaatataaaaatat-gatactatgtcctgatgaagcaatgtgttatacgttt--tgatagata-tatgtgatttccttttctgaaat----tattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
| | || | |||| | || | || || | | || || |||| | | | |||| || ||| ||| | | ||||||| || ||| | ||||| ||||||||| | || ||||||||||| |||||||||||||| || || || | || | || |||
ttgctgcgtggaatggtcgataggaagtagtcgtgggacaggggttgatgttgttgatgatggttggtttgtgtttcatcttttcaaaacgatctgtcagGTGGGCAAGAATTTGCATGTGCTGAGTCAACTTGACGGCGTGGACCTAGAGATGTACAAAGATGTTGTGCTCCCACGAGTTCTGGAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatgtgttatacgttttgatagatatatgtgatttccttttctgaaattattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
ttttgat putative branch site (score: 4)
ttttctgaaattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatataaaaatatgatactatgtcctgatgaagcaatgtgttatacgttttgatagatatatgtgatttccttttctgaaattattagGTGGGGAAAAATCTACATGTTCTGAGTCAAATAGAGGGCGTGGACCTTGAGATGTACAAAGACACCGTCCTTCCTAGTGTCTTAGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG