Sequence
atgc intronic sequence ATGC exonic sequence...acttttaatgtgaagctaccttgaattggtttctgacaaaaatcacaaaacagcagtaaatgctttgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
Basic information
species | Glycine max |
transcript | GLYMA10G35610.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35610.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 7
acttttaatgtgaagctaccttgaattggtttctgacaaaaatcacaaaacagcagtaaatgctt--tgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
|| || || | | | ||| || | || ||| || | | | |||||| | | || | | || |||||| |||| | ||| | | ||| || |||||||||| || ||| |||| || || |||||| |||||||||| ||||||||||||||||| |
-ctgttcgtgctagtatctatgttatttccttaattttgtggtt-taagtttacagcaagtatctagtatgctttgactgaccgaagtacttcattttgaagGAAGCTCACGCACGATTTTCCTATATCCGGGTTCCAAAAGTATATCAGCATCTAACGCGCAAAAGAGTTTTGACCATGGAATGGATGGTTGGTGAAAGCC
upper sequence: GLYMA10G35610.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G39190.1 (Arabidopsis thaliana), 3'ss of exon 7
-acttttaatgtgaagctaccttgaattggtttctgacaaaaatcacaaaacagcagtaaatgctttgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC----
| || | | | | || | ||| || || | | | || |||| | | |||| |||| | | || | | || |||||| |||| | ||| | | ||| || |||||||||| || ||| |||| || || |||||| |||||||||| ||||||||||||||||| |
tcgtgctagtatctatgttatttccttaattttgtggtttaagtt-tacagca--agtatctagtatgct--ttgactgaccgaagtacttcattttgaaggaagCTCACGCACGATTTTCCTATATCCGGGTTCCAAAAGTATATCAGCATCTAACGCGCAAAAGAGTTTTGACCATGGAATGGATGGTTGGTGAAAGCCCAAC
upper sequence: GLYMA10G35610.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0019g04130.t01 (Vitis vinifera), 3'ss of exon 7
acttttaatgtga--agctaccttgaattggtttctgacaaa-aatcacaaaacagcagtaaatgctt-tgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
| | || | || ||| || || | | | ||| || | |||||| | ||||| | || || || || || | |||||| ||| || |||||| | ||||| ||| |||||||| ||| |||| ||| |||||||||||| || || |||||||||||||| ||||| | ||
atatgcaaagagacaggctgatacctgtttattcttactgcatagtcaatttccaagattaaatgttcctgctcctc--cttaactgtttgtttctg--tacagGAAACTCATTCCTCCTTTTCATTTATTCGTGTTCCAAAAGTTCTTCGACATCTAAGTCGAAAGAGAGTGCTAACTATGGAGTGGATGGTGGGTGAGAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaaacagcagtaaatgctttgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
tgctaaa putative branch site (score: 2)
tttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttttaatgtgaagctaccttgaattggtttctgacaaaaatcacaaaacagcagtaaatgctttgctctttgaattgacatgttattgctaaatgcagGAAGTTCACTCTTCCTTTACTTTTATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - ccttgaa
- - - - - - - - - - - - - - - ttctgac
- - - - - - - - - - - - - - - - - - - - aatcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatg