Sequence
atgc intronic sequence ATGC exonic sequence...tctctgtatgttttatcttgatcacaggttttttaaacctaccatgaaaataatttgtgataattttttagctgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
Basic information
species | Glycine max |
transcript | GLYMA19G42900.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 7
tctctgtatgttttatcttgatcacaggttttttaaacc--taccatgaaaataatttgtgataattttttagctgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
|| | | || ||||| | | || ||| || | | | || | || | ||| | ||| ||| |||||| ||||| || ||||||||||| ||||||||||| ||||| |||||||| || || ||||||||
----------------gttagtta-agcccaaacaaaccctcattagttaacggttttatgctcagtgttaacttgg-----atgttggtgactgattccagGCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAG
upper sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 5
tctctgtatgttttatcttgatcacaggttttttaaacctaccatgaaa-ataatttgtgataattttttagctgttcaacaaattgct-cactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
|| || | || | ||| || | | || ||| | | | || | || || || | | ||||| || ||| |||||| || || || ||||||||||| ||||||||||| ||||| ||||| |||||||| ||||| ||
-----gtgagtcaaa-ctaggaaaca---cttactagtcaacgatgttatacacttcgagaacatcaagtattaacttggctgcttgctgtcctgatttcagGCATTCCACTGACCGTGAGGTTGCGCTTATGATGCTCATGGCTTACCTCTCCTACATGCTGGCCGAG
upper sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 7
tctctgtatgttttatctt--gatcac--aggttttttaaacctaccatgaaaataatttgtgataattttttagc-tgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
| |||| | | | | ||||| ||| | | || | || |||||| | ||| | | | |||| || || | | |||||||||||| ||||| |||||||| ||||||||||| |||||||||||||||||||| || ||||||
----tttatgataaaacctcagatcatgtaggaatacatataataatacgagaataatc-atactaaagacaaaatacacttacagaatttctgacaaaatccagGCACTCTACTGATCGGGAGGTTGCCCTTATGATGCTTATGGCATACCTTTCCTACATACTTGCTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaataatttgtgataattttttagctgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
tgctcac putative branch site (score: 2)
ctcactc CT-rich tract
taatttgtgataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctctgtatgttttatcttgatcacaggttttttaaacctaccatgaaaataatttgtgataattttttagctgttcaacaaattgctcactcattgcagGCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAA
- - tgtatgt
- - - - - - - - - - - - - - - - - - -cctacca
- - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgttc