Sequence
atgc intronic sequence ATGC exonic sequence...ataacttcatgtagttatttggttcattccacatatcttcaattatgactttaaaaaaaaaaaactaacttgaaaaaaactgtttgttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
Basic information
| species | Glycine max |
| transcript | GLYMA04G41590.1 |
| intron # | 7 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G41590.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G171410_T05 (Zea mays), 3'ss of exon 6
-------------------ataacttcatgtagt-tatttggttcattccacatatcttcaat---tatgactttaaaaaaaaaaaacta-----acttgaaaaaaactgtttgttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
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gttcttctctcatttactttcaacattttgtcgtatatcccgctatcattata-acctagaacctctgtaaattcaagcaagtagggtgatgagagttttcacaatgctaggttgtgttgaaac--agATTATCAAGGGAAGCTGGACTTGAATATGTGGAGATCCAGAATTTAACCGAGTTTTATGATGATAACAG
upper sequence: GLYMA04G41590.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 7
ataacttcatgtagttatttggttcattccacatatcttcaattatgactttaaaaaaaaaaaactaact-tgaaaaaaactgttt--gttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
| | || | | | | | | | || || | || | | || | || | | | || | ||||| || || | ||||||| || ||||||||||| ||||| | ||||| ||||||| ||| || || ||||||||||| |||||
---tcgtgatattgcttctagttgagctacaaatgacatctagtttgtatatatctttcgagtcttggtcatctaacttattgttttggtgtttgctattcagGTTAGCGAGGGAAGCTGGCCTTGAATTTGTGGAAATTCAAAGTTTAACAGATTTTTATGATGATAACAG
upper sequence: GLYMA04G41590.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0074g00190.t01 (Vitis vinifera), 3'ss of exon 7
ataacttcatgtagttatttggttcattccacatatcttc-----aattatgactttaaaaaaaaaaaactaacttgaaaaaaactgtttgttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
| | | || ||| | |||| ||| ||| ||| | || ||| || | | ||| | ||| | | | | | || || || ||||||||||||||||| || ||||||||||| ||||| ||||| || |||| || ||||||||||| |||||
--agactaacac--ttctttcctccatttcacttattttctcagcagttttgaattcttgacatgcaaaggatcttctgacacagtctaccttatttaa-ctcagGTTGGCCAGGGAGGCAGGTCTTGAGTATGTGGAAATTCAGAACCTGACTGACTTTTATGATGATAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgactttaaaaaaaaaaaactaacttgaaaaaaactgtttgttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
aactaac putative branch site (score: 1)
tttgttctt putative PPT
ttaaaaaaaaaaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataacttcatgtagttatttggttcattccacatatcttcaattatgactttaaaaaaaaaaaactaacttgaaaaaaactgtttgttcttaaaactcagGTTGGCCAGGGAAGCTGGTCTTGAGTACGTGGAGATTCAAAATTTGACCGAGTTTTATGATGACAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - tcatgta
- - - - - - - - - - - - cattcca
- - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
