Sequence
atgc intronic sequence ATGC exonic sequencegtatgatttgtagttttacatcaacaacataatatgacttctaccgttccctgattttacagtgatagataattatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
Basic information
species | Glycine max |
transcript | GLYMA15G37670.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g72340.2 (Oryza sativa), 3'ss of exon 11
gtatgatttgtagttttacatcaacaacataatatgacttctaccgttccctgattttacagtgatagata-attatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
||| || | || | || | | |||| | || | | | ||| | | ||| | ||| | || |||| ||||| | ||| | ||||||||||| ||||||||||||||||| ||| | || ||||||| || || |||||||| ||||||||||||| || ||||| ||||| |||
---------gtatgttcaatgcagcctcacatgttaacttgttccccttttttgtattaaaattccagaaatgttaaagaaaattttccattttgtt---ttcaa-----------gATATTCACATGCTATGGGAAACAGTAATGGAAATATTGATGCATATTGGATGGCCATAGACAACACTGTTGGACTCCAAGGTGGTTTTATATGGGACTGG
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G032496_T01 (Zea mays), 3'ss of exon 3
gtatgatttgtagttttacatcaacaacataatatgacttctaccgttccctgattttacagtgatagataattatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
|| | | | || | | || ||| || | || |||| | || | | || ||||| | || | | ||| | ||||||||||| ||||||||||||||||||||| | || |||||| || || |||||||| ||||||||||||||||| ||||| ||||| |||
------------gtatgctaagcatgacctcacatattaataaccctttatccgtattcatatgatt--tgatgaaagaactttttccttttgct----ttcaa-----------gATATTCACATGCTATGGGAAACAGTAATGGGAATATTGATGCGTATTGGATGGCCATAGACAACACTTTTGGACTCCAAGGAGGTTTTATATGGGACTGG
upper sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 10
----gtatgatttgtagttttacatcaacaacataatatgacttctaccgttccctgattttacagtgatagataattatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
|| ||| |||||| || |||| | | || | |||| || | | | | |||| | | | || || | | ||| || |||||| |||||| | ||||||||||| || || ||| | || |||||||||||| ||||| |||||||||||| | |||||||||||||| |||||||||
gtatgttcctttttcagtttttgatttacaaaaatgt-tgtaatgtacccaaattcaatccttttgacaatgccaattgatttgcataaatatacttataaaaat--gttcaactgtcagGTACTCACATTCCATGGGAAACAGCAACGGAAATATTCAAGAATATTGGGAAGCTATTGATAACACATTTGGATTACAAGGAGGCTTTATCTGGGATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatagataattatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
ataattatataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatttgtagttttacatcaacaacataatatgacttctaccgttccctgattttacagtgatagataattatataatttttttttatttgtgatgtccaacccaaatggcagGTATTCACATGCAATGGGAAACAGTAATGGGAATCTACATATATATTGGGAAGCAATTGACAACACATTTGGACTCCAAGGAGGCTTTATTTGGGATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG