Sequence
atgc intronic sequence ATGC exonic sequence...cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaattattacaatgtatcatacagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA05G35860.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 9
----cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaattattacaatgtatcatacagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
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tgggacttctaactttgttcatatcaatcttttgtgttc--ttggtccatgcctttgaccacacagcatttat-ttataataattaa-actgtatctttcacagGACAGCACAAAAGGCTCATATTTTCACCACCTGTTGCTGTGTTTCCACACCCCCTTGCCAGTGATCTTAGCTTCTCCAG
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 9
cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaatta---ttacaatgtatcatacagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
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----------------------gtaacatttgcttca----aatttccctccaacttatagttgacagttttttcatgtttccacttaccttcttctttccagGTGCTCATAAGAGGCTCATTACATCTCCTCCTGTTGCTGTTTTCCCTCACCCTCTCGCGAGTGATCTAAGTTTTGGACG
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaattatta----caatgtatcat-acagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
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--gttgaaaggaaggggacta---tttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcctaaaagaatgaagtcctaatattctaacaattattacaatgtatcatacagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
ttctaac putative branch site (score: 1)
taatattctaacaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaattattacaatgtatcatacagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - -tactgca
- - - - - - - - - - - - - - - - - -aacaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa