Sequence
atgc intronic sequence ATGC exonic sequencegttcatcaatttgatactttacattgacatgaggtgcagGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
Basic information
species | Glycine max |
transcript | GLYMA08G15360.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15360.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 11
-------------------------gttcat--caatttg-atactttacattgacatgaggtgca------------gGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
| | || |||| | ||| | | ||| ||| | |||| ||||||||| |||||||||||||| ||| ||||||| || |||||||| | ||| |||| ||||| | ||||||||||||||||| |||||||| | ||
gtaaatttttccaacctaaaaatgtggttattccaatctatatatacttcgctgaaatgcgatgcaatgatcttttcagGCTCAGCAATTGAACAAGGATATTTTTGAGACTATTTATTATCATGCCTTGAAAGCTTCTGCTGAAATTGCTGCAAAAGAAGGTCCTTATGAAACTTATA
upper sequence: GLYMA08G15360.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 11
-----------------------------------------------gttcatcaatttgatactttacat-tgacatgaggt--gcagGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
| | | |||||| | ||| || | | | |||||||| |||||||| |||||||||||| | ||||| ||||||||||| || ||| |||| ||||| | |||| |||||||||||||||||||||| |
gtacctttccatttctatgtagctcatcattaaccatatgttcctttctgtaattagttgatatgtaacaaatggttttatattttcagGCTCATCAGTTGAATAAGGATATATTTGAAACTATCTACTATCATGCTCTGAAATCTTCTGCTGAACTTGCTGTTAAAGAAGGTCCCTATGAAACATATG
upper sequence: GLYMA08G15360.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G304362_T01 (Zea mays), 3'ss of exon 11
-----------------------------------------------gttcatcaatttgatactttacat-tgacatgaggt--gcagGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
| | | | |||||| | ||| || | | | |||||||| |||||||| ||||||||||| | ||||| ||||||||||| || ||| |||| ||||| | ||||| |||||||||||||||||||||| |
gtaccttttcatttctccgtagctcagcattaaccacctgttcttttctgtaactagttgatatgtaacaaatggttttatcttttcagGCTCAACAGTTGAATAAGGATATATTCGAAACTATCTACTATCATGCTCTGAAAGCTTCTGCTGAACTTGCTGCTAAAGAAGGTCCCTATGAAACATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcatcaatttgatactttacattgacatgaggtgcagGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
cattgac putative branch site (score: 3)
aatttgatacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatcaatttgatactttacattgacatgaggtgcagGCTCAGCAGTTGAACAAGGATATATTTCAGACTATATACTATCATGCACTAAAAACTTCATCTGAATTGGCTGCAAAAGAAGGTCCCTATGAAACATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG