Sequence
atgc intronic sequence ATGC exonic sequence...tctgtgttgcatcttgattcattcagatatgagatatataattggccacttttaatacaatttactgtgtgatattgactttaacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
Basic information
species | Glycine max |
transcript | GLYMA12G37100.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 15
--------------------------------------------------tctgtgttgcatcttg-attcattcagatatgagatat--ataattggccacttttaatacaattt---actgtgtgatattgactttaacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
|||| | | ||| | || | || | | || | || || | || | | ||| ||| ||| | ||| | |||||||| || ||||| ||||||||||| ||||||||||| ||||||||| | |||
gttaatatatctcgtacactgatgtactggtgttccccatatttgatttttctgaataataacttatgataatcttgtcatttgctgccgattttcaaatgtcctttatttagttaagaatttggtgtcatttactgttttttttttcatgtccagCTTGGGTACACCAAGAAACAAGAGGAGAGACATTTTCGAGGTGTTATTGTCCTGGAG
upper sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 15
tctgtgttgcatcttgattcattcagatatgagatatataattggccacttttaatacaatttactgtgtgatattgactttaacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
||| | |||| | | ||| | ||| | | ||| ||||| ||| | || || || || | ||||||||||| || || ||||||||||| ||||||||||| |||||
------------gttggtagtatcagcattaaaatac----tcatccattccttttaccatttatggtgcc-tcttaacatttgttttgtggc----cagCTTGGATACACAAAGAAACAAGAGGAGAGACATTTTCGGGGTGT-------------
upper sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 15
---------------------------------------------tctgtgttgcatcttgat-tcattcagat----atgagatatataattggccacttttaatacaatttactgtgtgatattgactt--taacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
| ||| |||| |||| | || | || ||| |||| | | ||| | | || | || | | | |||| |||||||||||| || |||||||| ||||||||||| ||||| || ||||| || || ||||||
gttagtaaagtatcagttcatcactggatgtgccctttttgtattctttcattggttctttgcaccatttttgtctccatcaaatgtatcattgaattttaaaatgacagagtgccgtatttcatcaatatggttgtctttttgtttcacagCTTGGTTACACCAAAAAGCAAGAGGAAAGGCATTTCCGTGGTGTCATCACTTTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccacttttaatacaatttactgtgtgatattgactttaacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
cctttca CT-rich tract
tttaatacaatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgtgttgcatcttgattcattcagatatgagatatataattggccacttttaatacaatttactgtgtgatattgactttaacctttcaacttcacagCTTGGATATACCAAAAAACAAGAGGAAAGACATTTTCGCGGTGTTATTACATTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - tgttgca
- - - - - - - - - tcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtga