Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttattttatcaactaccatagttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
Basic information
species | Glycine max |
transcript | GLYMA07G40300.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G485898_T01 (Zea mays), 3'ss of exon 18
gtgagtttattttatcaactaccatagttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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---------------------------------gtttctg-tttcatgccatgcattgtcttact--aatccagTGTAGCAGGCTGTGGTTCTCTGCCAAGTAGAGAAAGCCAAAGAAGATATGCTCAGCCAGTTATATACTTCTATAAG
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 7
-gtgagtttattttatcaactaccatagttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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gttcatattgttctgttaatcagtttaaatggccttgt---atttgtgtcaaattttca--ttgcttgtctgt-acttgttagGCTATTGTGCTGTGCCAAGTGGAGAAAGCAAAGGAAGACATGCTTAACCAGCTATACAGCTCGATAAG
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 19
-gtgagtttattttatcaactaccatagttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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gttcatattggtctgtcaaccagtttaaatggcctttt---atttgtgtcaaattctta--ttgtttgtctgt-acttgttagGCTATTGTGCTTTGTCAAGTGGAGAAAGCAAAGGAAGACATGCTTAACCAGCTATACAGCTCGATAAG
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 19
-------------------------gtgagttt---attttatcaactaccatagttcttctcttctgatttgacg--cggtttgtgagatgatttcactttgac-tgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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gtgaactatccttatgcaaaagctcgaaagctctaaattttcttgtccatctcttttctcttacagagattcctcggtcatgctactaagcgatgtgaattgaccatgaacagGCTGTTGTTCTTTGTCAAGTAGAGAAAGCAAAGGAAGACATGCTGAATCAACTCTACAGTTCTATAAG
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 19
--------gtgagtttattttatcaactaccatagttcttctct--tctgatttgacgcggtttg-tgagatgatttcactt-tgactg-agcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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gtggactagtcacttt-tcttgtgaattcttaaattcccatgccaatatcgcttttcattactcgatcacattactaaatctgtgacttcaacagGCTGTTGTTCTCTGTCAAGTGGAGAAATCCAAGGAAGACATGCTGAATCAGCTATACAGCTCTATCAG
upper sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 19
gtgagtttattttatcaa--ctaccatagttcttctcttctgat-ttgacgcggtt-tgtgagatgatttcact-------ttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
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gtcggtttgttttcttaaatccattatgattcatgtattttgttgcttttgtagttctctgagtcttctttattacctgttctggttgagcagGCAGTTGTCCTTTGCCAAGTAGAAAAATCCAAGGAAGATATGCTTAATCAGTTATACAGTTCTGTCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|17518741|gb|BM187783.1|BM187783EST: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTCGCTGCAAATGTTCCAAAA GCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAG
genomic: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTCGCTGCAAATGTTCCAAAAgtgagtttat ... gactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAG
EST:
gi|13252141|gb|BG363044.1|BG363044EST: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTCGCTGCAAATGTTCCAAAA GCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAG
genomic: GTGGTTATGTTGAAGCTGTTCTTAACAGCCTCGCTGCAAATGTTCCAAAAgtgagtttat ... gactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
atgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttattttatcaactaccatagttcttctcttctgatttgacgcggtttgtgagatgatttcactttgactgagcagGCAGTTGTTCTTTGCCAAGTAGAGAAAGCCAAAGAAGACATGCTCAACCAGCTATACAGTTCCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG