Sequence
atgc intronic sequence ATGC exonic sequence...cacatgactcagatcatataacaatttctcctaaattatgaatcgttaatttcataattagtgcaaattaacgtatgtgaatggtgttggtgagatgcagGACGAGATGATGTGGGCAGCAACATGGCTATACATGGCAACCAGGAAGTCTGTGTATATGAAGTACATAACAGAAGAATGCATGAGTGCAAGTGTAGCAG
Basic information
species | Glycine max |
transcript | GLYMA06G05930.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G43860.1 (Arabidopsis thaliana), 3'ss of exon 4
------cacatgactcagatc-atataacaatttctcctaaatta-tgaatcgttaatt-tcataattagtgcaaattaacgtatgtgaatggtgttgg-tgagatgcagGACGAGATGATGTGGGCAGCAACATGGCTATACATGGCAACCAGGAAGTCTGTGTATATGAAGTACATAACAGAAGAATGCATGAGTGCAAGTGTAGCAG
| ||| || || | || | |||| |||| | | | || || || | || || ||| || | ||| || | | || |||||||| |||| ||||| |||||||||||||||| ||| || ||||| | | || | | ||| | | | ||| ||| || || || || |
gtaaatctcatctctatcttccaaatcattttttccttcaaataaatacactttttgttgtctttgttcatgttg--taattgatattaattttgacaaataatgtgaagGACGAGTTGATATGGGCGGCAACATGGCTATACAAGGCGACAAGGAATCATCTATACCTTAGCTACCTCAAATTCGAAGCCATAAGCGCTTACGTTGCCG
upper sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------------------cacatgactcagatcatataacaatttctcctaaattatgaatcgttaatttcataattagtgcaaattaacgtatg-tgaatggtgttggtgagat-gcagGACGAGATGATGTGGGCAGCAACATGGCTATACATGGCAACCAGGAAGTCTGTGTATATGAAGTACATAACAGAAGAATGCATGAGTGCAAGTGTAGCAG
| | ||| || || | ||| | | || | || | | || | | | ||| | | |||||| | || |||||| ||| | ||||||||||||||||||||||||| || || |||||| | || |||| |||||| ||||||| ||| |||||||||||||| |
gtgatttttctccacccttcctcttcagtgaaaataccagaagcctatttggtttccaaactgttttctatttaaaatttatccaaaatgtttatgataaaatgttaaggtaagatggaatgattaatgatttaaaatgttgggggaattgcagGATGAGCTATTGTGGGCAGCAACATGGCTATACATTGCCACAAGGAAGCCAAAATACTTGAAATACATACAGGAAGAATCCATAAGTGCAAGTGTAGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaatttcataattagtgcaaattaacgtatgtgaatggtgttggtgagatgcagGACGAGATGATGTGGGCAGCAACATGGCTATACATGGCAACCAGGAAGTCTGTGTATATGAAGTACATAACAGAAGAATGCATGAGTGCAAGTGTAGCAG
aattaac putative branch site (score: 2)
ttcataatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacatgactcagatcatataacaatttctcctaaattatgaatcgttaatttcataattagtgcaaattaacgtatgtgaatggtgttggtgagatgcagGACGAGATGATGTGGGCAGCAACATGGCTATACATGGCAACCAGGAAGTCTGTGTATATGAAGTACATAACAGAAGAATGCATGAGTGCAAGTGTAGCAG
-acatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttagtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgg